genome.fa.s29.2.7.7.80.10.50.1000.31.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   

This is table  31  of  34  ( 4030 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4872705--4872836	35	3.9	35	84	7	177	30	25	12	31	1.92
4873355--4873410	19	2.9	19	83	2	67	33	16	16	33	1.91
4876695--4876751	21	2.7	21	82	15	73	22	26	1	49	1.60
4878660--4878707	21	2.3	21	100	0	96	14	16	14	54	1.72
4878949--4879004	19	2.9	19	89	2	76	35	16	14	33	1.88
4878971--4879022	19	2.7	19	84	3	59	38	15	17	28	1.90
4881137--4881167	16	1.9	16	93	0	53	0	9	6	83	0.79
4882549--4883094	52	10.5	52	79	5	437	26	21	14	37	1.92
4882580--4883095	156	3.3	154	77	6	504	26	21	14	37	1.92
4885134--4885166	16	2.0	17	88	5	50	48	9	0	42	1.35
4887417--4887470	11	5.0	11	78	13	58	0	22	0	77	0.76
4887417--4887459	19	2.3	19	88	8	61	0	20	0	79	0.74
4887427--4887465	20	1.9	21	89	5	62	0	17	0	82	0.68
4887846--4888520	166	4.1	161	79	9	617	50	7	11	30	1.66
4887846--4888520	165	4.1	163	78	11	611	50	7	11	30	1.66
4892431--4892462	16	2.0	16	93	0	55	28	6	28	37	1.81
4893580--4893677	27	3.6	27	84	5	135	28	31	12	27	1.93
4899195--4899596	142	2.8	141	87	2	563	42	11	11	34	1.78
4900763--4900793	15	2.1	15	93	0	53	74	0	3	22	0.96
4900918--4901265	167	2.1	164	82	5	425	49	9	10	30	1.69
4900894--4901430	164	3.2	163	78	8	482	49	9	10	30	1.70
4902720--4902764	21	2.1	21	95	0	81	46	11	11	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4902802--4902849	20	2.3	21	85	3	62	39	6	20	33	1.78
4902954--4903025	32	2.2	32	87	4	101	26	19	15	38	1.91
4906742--4906833	40	2.3	41	83	5	116	38	33	18	9	1.84
4906597--4906896	107	2.8	107	89	0	447	39	31	17	11	1.85
4907808--4907832	13	1.9	13	100	0	50	32	16	16	36	1.90
4910297--4910322	13	2.0	13	100	0	52	30	15	15	38	1.88
4910277--4910340	32	2.0	33	87	3	94	29	14	14	42	1.84
4910638--4910683	22	2.1	22	84	8	58	32	8	8	50	1.64
4913289--4913314	13	2.0	13	100	0	52	38	15	15	30	1.88
4913271--4913332	32	1.9	33	90	3	99	41	14	14	29	1.85
4917392--4917422	15	2.1	15	93	0	53	48	16	22	12	1.80
4919506--4919543	13	2.9	13	96	0	67	34	18	15	31	1.92
4919660--4919699	22	2.0	20	85	14	55	25	20	5	50	1.68
4934545--4934891	42	8.2	42	72	11	165	17	27	17	37	1.92
4934569--4934734	85	2.0	85	82	7	203	16	28	15	38	1.90
4934632--4934935	42	7.2	42	74	9	165	16	25	19	38	1.92
4934665--4935481	42	19.4	42	69	9	245	18	27	17	36	1.94
4934650--4935642	84	11.8	84	79	3	757	18	27	17	36	1.94
4935465--4935607	42	3.4	42	75	7	146	21	28	16	32	1.95
4936536--4936583	7	6.9	7	79	9	53	81	2	0	16	0.79
4936541--4936578	9	4.6	8	90	9	51	84	0	0	15	0.63
4936515--4936583	16	4.2	16	78	12	70	75	1	2	20	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4936543--4936583	4	10.5	4	80	15	50	82	0	0	17	0.66
4936543--4936583	20	2.1	19	95	4	73	82	0	0	17	0.66
4937226--4937429	107	1.9	107	87	2	302	39	29	16	14	1.88
4941337--4941385	24	2.0	24	84	7	64	79	8	8	4	1.04
4941339--4941386	11	4.2	11	76	10	51	81	6	8	4	0.98
4942406--4942453	21	2.3	21	89	3	71	39	18	8	33	1.81
4943606--4943662	23	2.5	22	83	5	69	38	5	35	21	1.76
4949005--4949044	20	2.0	20	85	14	55	32	22	0	45	1.53
4951195--4951245	22	2.4	21	83	9	59	37	7	9	45	1.67
4955419--4955457	12	3.5	12	86	13	57	0	17	0	82	0.68
4955905--4956472	167	3.4	166	80	4	601	48	8	10	32	1.67
4958133--4958703	47	12.8	47	69	15	244	40	15	22	21	1.91
4958231--4958302	36	2.0	36	81	5	83	41	8	26	23	1.82
4958408--4958479	35	2.0	36	83	2	92	47	12	19	20	1.82
4958599--4958703	48	2.2	47	82	3	120	36	16	25	21	1.94
4958338--4958835	132	3.8	131	82	3	581	39	16	21	22	1.92
4965286--4965321	10	3.5	10	92	3	54	0	16	0	83	0.65
4965284--4965321	13	3.4	11	89	10	51	0	15	0	84	0.63
4968445--4968502	21	2.7	22	77	15	68	50	1	29	18	1.57
4970169--4970224	18	3.0	18	80	12	60	32	14	14	39	1.86
4970175--4970226	10	5.4	10	78	17	65	32	13	15	38	1.86
4970915--4970957	21	2.0	21	95	0	77	41	0	30	27	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4972755--4973210	165	2.8	166	86	3	611	50	7	7	33	1.59
4975190--4975621	164	2.6	161	79	7	458	31	10	8	49	1.68
4976114--4976159	12	3.8	12	80	5	56	80	0	19	0	0.71
4976127--4976165	15	2.4	17	83	12	55	84	0	15	0	0.62
4976115--4976165	11	4.7	10	86	13	66	82	0	17	0	0.67
4977015--4977051	16	2.3	16	90	9	58	78	0	0	21	0.75
4977086--4977591	134	3.7	133	76	12	373	33	11	10	44	1.75
4977198--4977607	143	2.9	141	83	4	529	34	10	10	44	1.73
4982037--4982075	20	2.0	20	89	0	60	35	7	20	35	1.81
4988417--4988469	28	2.0	26	81	7	61	28	30	15	26	1.96
4988276--4988517	134	1.8	134	86	1	351	27	26	10	35	1.89
4988371--4988598	80	2.8	80	81	4	226	28	25	10	35	1.90
4989577--4989627	19	2.6	19	84	3	57	37	15	11	35	1.84
4989614--4989640	13	2.1	13	100	0	54	29	14	14	40	1.86
4997627--4997667	20	2.0	20	95	0	73	39	9	21	29	1.86
4997734--4997892	51	3.1	51	94	0	273	28	16	16	38	1.91
5000267--5000670	81	5.0	82	77	6	340	29	25	10	33	1.90
5000621--5000738	52	2.3	53	79	7	125	27	28	10	33	1.89
5004086--5004805	49	14.9	49	85	5	932	29	17	27	25	1.98
5004805--5004876	33	2.2	33	87	2	110	20	16	36	26	1.94
5004859--5005009	32	4.4	34	86	7	207	30	11	36	21	1.89
5004859--5005016	66	2.3	70	85	9	220	32	10	35	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5004876--5005164	93	3.0	93	82	7	294	31	14	31	22	1.94
5004876--5005164	31	9.0	32	87	4	232	31	14	31	22	1.94
5005266--5005303	16	2.3	17	86	4	51	26	5	23	44	1.74
5006459--5006538	1	80.0	1	69	0	52	0	0	15	85	0.61
5006461--5006519	9	6.7	9	84	9	77	0	0	16	83	0.66
5006459--5006538	9	8.7	9	78	16	76	0	0	15	85	0.61
5006462--5006538	16	4.8	16	84	9	95	0	0	15	84	0.62
5013453--5013572	52	2.3	52	95	0	213	28	17	19	35	1.94
5013453--5013592	52	2.7	52	86	4	185	29	17	20	33	1.95
5013581--5013605	13	1.9	13	100	0	50	36	16	16	32	1.90
5013646--5013712	33	2.0	33	88	0	98	40	13	11	34	1.81
5013668--5013692	13	1.9	13	100	0	50	32	16	16	36	1.90
5014686--5014711	13	2.0	13	100	0	52	38	15	15	30	1.88
5014810--5014834	13	1.9	13	100	0	50	36	16	16	32	1.90
5015396--5015440	22	2.0	22	87	8	65	35	26	0	37	1.57
5017299--5017337	13	3.0	13	88	0	60	38	17	12	30	1.88
5031926--5031967	20	2.0	22	86	9	61	47	0	26	26	1.52
5031926--5031972	22	2.1	22	81	14	53	48	0	23	27	1.51
5039884--5039964	20	4.0	19	75	13	72	38	9	18	33	1.84
5047128--5047254	51	2.5	52	86	1	175	29	16	15	37	1.90
5047263--5047287	13	1.9	13	100	0	50	36	16	16	32	1.90
5047331--5047428	19	5.8	18	69	28	81	37	17	11	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5047350--5047406	13	3.9	13	72	24	51	35	17	12	35	1.87
5047329--5047426	32	3.0	32	93	1	169	36	17	11	34	1.85
5056373--5056427	20	2.8	20	86	2	76	34	14	12	38	1.84
5057352--5057388	19	1.9	19	88	0	56	29	10	10	48	1.72
5076931--5076967	19	1.9	19	88	0	56	48	10	16	24	1.77
5079231--5079454	62	3.5	63	77	4	193	28	22	15	33	1.94
5080135--5080229	21	4.6	21	88	2	129	38	10	21	29	1.86
5080287--5080406	51	2.4	50	83	4	159	30	15	14	39	1.87
5083118--5083168	20	2.5	21	83	3	68	41	15	15	27	1.88
5083220--5083244	13	1.9	13	100	0	50	32	16	16	36	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34